BtaINT0128845 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45213772-45214890:-
Coord C1 exon
chr7:45214808-45214890
Coord A exon
chr7:45213964-45214807
Coord C2 exon
chr7:45213772-45213963
Length
844 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
CCTTGACTGCTCCCCTGCAGGGC
3' ss Score
9.31
Exon sequences
Seq C1 exon
AGGCGTCTTTTTGTCGCTAATTCAGAAGCACTTTCCTTCGACCAAGAGAAGGCGAGAGAGAGGAGCAGGCAGTAAGAGAAAGC
Seq A exon
GTAAGTGCCCACTGCCTGGACCTTGTGCCTATGGCCCCTCACTGCTCCTGCCGGTCCTCCAGCCTCCCTCCTTTCTGACCCTCGACCTGGGTTGGTGTGCTGCCACACAGCCACATGGCCTGAGCCCGTCCCCACCCTAGCTCTCCAGCGCAGCTGCTCAGTCAGCAAAAAACCCCAGTGCTGCAGGATGACGGTGTGGCTAGTGCATCCCCAAGGCCTCCAGCCTCATCCCCAGAAGGCAGGGCCTCGTATTCCCCAGGTAAAAGTGAGCCTGAGGCTGAAACTGCACTGGTTCAGGGGACCAGGATGGGGCTCATACAAAGCACCCCAGGATAGGGGAGTGGCCCGAGCACCTACCTGCAGGCACACACTGCACCCTGTTCTTGCAGGCAAAGGCTGAGCATCCTCTCATCAGGGGGAAGTGAGGCTCAGAGAGACCAAGCAACTCACCTGAGAGCACACAGCCAGCCTTGGGGCCCAGTCCTGCCCCTCTGGCTGGGAACACCCTGCAGGGTGTCTGGGACAGTATCCAGGTTACTTGGGCCCCTGGACTGCCACCCCCCAGGGTTTGGGCATGTCCTCTGGCCTACCCACCCAGTGCCACCTTGTGAGGTGGGGCACGTGGCCTCCCCGGGCACCACCCAAGGACACACTGCTATGTCAGGAAGTCTGGCAGGGTCGGTAACACGTCCCCACCACCAGCAGCGCCCAGACATGCCACAGCTGCACAGGGGGAAAGGGCTTGGGCTATAAGCCCTAACCATCCAGGCATGCAGCCTGTCCATGGACCACTGGGAGTCTCCCTGGGACCAGGCTGCAGTGACCCTTGACTGCTCCCCTGCAG
Seq C2 exon
GGCGGCCACGGGGCCGTGGGGCCAAGGCACCCAGGCTGGTGTATGAGGCAGCAGGTGTGATCCGCATTAGTGACGACAGCAGCACAGAGTCGGACGGTGGCCTGGACAGTGACTTCCACTCCTCCCCCGAGTCCCTGTTGGACGACGATGTGGTCATCGTGGATGCCATCGGGCTCCCAGCCGATGACCGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.483 A=NA C2=0.431
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTCTTTTTGTCGCTAATTCAGA
R:
CGGTCATCGGCTGGGAGC
Band lengths:
271-1115
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]